hoomd-blue Questions

Questions on the go

I couldn't find a way to spawn a new particle into the lattice
- This also means, that if we have to re-initialize the system, that would be scientifically incorrect as the thermodynamics are set randomly
In the python code, the CellCycle Checkpoints are checked at every timestep / In Hoomd I cannot do that
We might be able to tweak the masses of the particles / particle types to avoid explosion / implosion of the system
We definitely have a trade-off in self developed code from analogue systems to semi digital systems.
- In the python2 code, the cells can have any size, compound secretion levels or so
- In the hoomd system, it seems like we have to specify ditinct Types

Approaches i tried to spawn a particle

There seems to be a solution

Saving a GSD

I tried many other approaches

Reinitialized the system with new UNITCELL
- Error: System cannot be reinitialized
Edit hoomd system data
- Value error, attributes cannot be set
Edit the GSD Snapshot file
- Snapshot doesn't have "broadcast box" property
- Finally figured out, that saving the file and using the GSD to "restart" could solve it, but no. Again: "Cannot reinitialize more than once"